Minato Sahashi, a typical ronin student, finds his life suddenly changed after meeting a strange girl named Musubi. Minato discovers learns that she is a 'Sekirei' and that he is her 'Ashikabi' (ie. Master).

Minato is in despair as Musubi is down for the count, but refuses to give up, much to Benitsubasa's irritation, who proceeds to deal with him. Battles rage elsewhere as Kuno and Shiina (along with their respective Ashikabi) come under assault from various adversaries, and thus decided to have themselves winged, repulsing the attacks. But in a twist of fate, someone from Karasuba's past comes to Minato's aid in assisting Kuno and Shiina.

Seo aids Matsu in securing MBI data for Higa while Minato and Musubi confront Minaka before he escapes, leaving the MBI Tower as it gets destroyed. Karasuba engages Musubi after she threatens death of Minato's other Sekireis. Under a Norito, Musubi was able to defeat Karasuba for the latter to concede defeat. With the tower destroyed, everyone began to return back to their normal lives. Higa was covertly given false data after Seo advised Matsu. Thanks to the data recovery, Chiho was successfully cured of her sickness.